Lathyrus sativus LS007 genome assembly and annotation Rbp1.0

Genome assembly of grass pea (Lathyrus sativus L.) genotype LS007, assembled from PromethION nanopore data and polished using Illumina HiSeq PE data. The assembly was annotated using the mikado-minos pipeline developed by the Earlham Institute. Also included is a separate annotation track for repeat sequences produced using the DANTE pipleline. 

For any questions regarding this dataset, contact peter.emmrich@jic.ac.uk

Note: ctg14433 has been manually corrected based on sequenced amplicon data. Files have been updated accordingly.

Assembly files:

Lsativus_LS007_Rbp1.0.7z - compressed complete assembly without scaffolding. The annotation refers to this assembly

Rbp_9 largest HiC scaffolds.7z - compressed fasta file of the largest 9 scaffolds following HiC scaffolding

Lsat_LS007_Rbp_chloroplast.fasta - fasta file of the complete LS007 chloroplast genome

Lsat_LS007_Rbp_mitochondrion.fasta - fasta file of the complete LS007 mitochondrial genome

Annotation tracks:

LATSA3860_EIv1.0.annotation.gff3

DANTE_transposable_element_protein_domains.gff3

Full_length_LTR_retrotransposons.gff3

Repeat_annotation_classI_classII_satellites.gff3

Annotation FASTA files:

LATSA3860_EIv1.0.annotation.gff3.cds.fasta

LATSA3860_EIv1.0.annotation.gff3.cdna.fasta

LATSA3860_EIv1.0.annotation.gff3.pep.fasta

Summaries and statistics:

LATSA3860_EIv1.0.annotation.gff3.final_table.tsv

LATSA3860_EIv1.0.annotation.gff3.mikado_stats.txt

LATSA3860_EIv1.0.annotation.gff3.biotype_conf.summary

LATSA3860_EIv1.0.annotation.gff3.final_table.tsv

LATSA3860_EIv1.0.annotation.gff3.pep.fasta.functional_annotation.tsv

NOT_UPDATED_LATSA3860_EIv1.0.annotation.gff3.metrics.tsv *

Blobtools_passed_contigs.txt - list of all contigs of the assembly that pass the BlobTools filter (Streptophyta, 20-100x coverage, >50 kbp) 

*this file has not been updated to reflect the correction to ctg14433